Biological Assembly 1  

 3D View: Structure

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 5.68 kDa 
• Atom Count: 396 
• Modelled Residue Count: 52 
• Deposited Residue Count: 52 
• Unique protein chains: 1

1E8J

SOLUTION STRUCTURE OF DESULFOVIBRIO GIGAS ZINC RUBREDOXIN, NMR, 20 STRUCTURES

• DOI: 10.2210/pdb1E8J/pdb

• Classification: ELECTRON TRANSPORT
• Organism(s): Desulfovibrio gigas
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2000-09-21 Released: 2001-10-18 
• Deposition Author(s): Lamosa, P., Brennan, L., Vis, H., Turner, D.L., Santos, H.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 500 
• Conformers Submitted: 20 
• Selection Criteria: LEAST RESTRAINT VIOLATION 

Literature

NMR structure of Desulfovibrio gigas rubredoxin: a model for studying protein stabilization by compatible solutes.

Lamosa, P., Brennan, L., Vis, H., Turner, D.L., Santos, H.

(2001) Extremophiles 5: 303-311

• PubMed: 11699644 
• DOI: 10.1007/s007920100206
• Primary Citation of Related Structures:  
  1E8J


• PubMed Abstract: 
  

Rubredoxins are small, soluble proteins that display a wide variation in thermostability, despite having a high degree of sequence similarity They also vary in the extent to which they are stabilized by solutes such as diglycerol phosphate. Hence, they provide excellent models for studying the mechanisms of thermostabilization. Nuclear magnetic resonance (NMR) spectroscopy can be used to investigate interactions between molecules, as well as subtle changes in conformation in solution, and also provides a means to measure protein stability. The assignment of the proton NMR spectrum of the zinc rubredoxin from Desulfovibrio gigas is presented, together with its structure in solution. The stabilizing effect of diglycerol phosphate on rubredoxin is demonstrated and assessed by determining selected amide proton exchange rates; diglycerol phosphate at 100 mM concentration caused an additional structural stabilization of 1.2 +/-0.4 kJ/mol. The pattern of effects on the exchange rates is discussed in relation to the protein structure.

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Related Citations: 

• Thermostabilization of Proteins by Diglycerol Phosphate, a New Compatible Solute from the Hyperthermophile Archaeoglobus Fulgidus
  Lamosa, P., Burke, A., Peist, R., Huber, R., Liu, M.-Y., Silva, G., Rodrigues-Pousada, C., Legall, J., Maycock, C., Santos, H.
  (2000) Appl Environ Microbiol 66: 1974

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Organizational Affiliation: 

Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, Rua da Quinta Grande 6, Apartado 127. 2780 Oeiras, Portugal.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RUBREDOXIN	A	52	Desulfovibrio gigas	Mutation(s): 0
UniProt
Find proteins for P00270 (Desulfovibrio gigas) Explore P00270  Go to UniProtKB:  P00270

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 500 
• Conformers Submitted: 20 
• Selection Criteria: LEAST RESTRAINT VIOLATION 
• OLDERADO: 1E8J Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2000-09-21 
• Released Date: 2001-10-18 
Deposition Author(s): Lamosa, P., Brennan, L., Vis, H., Turner, D.L., Santos, H.

Revision History  

• Version 1.0: 2001-10-18
  Type: Initial release
  
• Version 1.1: 2013-01-30
  Changes: Database references, Derived calculations, Other, Structure summary, Version format compliance
• Version 1.2: 2019-10-09
  Changes: Data collection, Database references, Other